MOAT output

I have a problem with the analysis and I’m not sure if I am using you software properly. I am trying to calculate the mutation burden of some of my samples (similar to the measurements performed here: I ended up trying to using MOAT from the second comment of this post in Biostars ( However I cannot obtain the percentage as (nr.mutations/Mb). I am using MOAT-a using the argument “—wg_signal_mode=n”, I am doing something wrong?

MOAT-a wasn’t meant to be used that way. The simulated variants in MOAT-a are internal data used to calculate p-value significance for elevated mutation burden on the input annotations. You can use MOAT-s to create a simulated variant set, and then calculate (number_of_mutations)/Mb from that.

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